Variant report

Variant	rs6930122
Chromosome Location	chr6:55542959-55542960
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:55514122..55516978-chr6:55542279..55544094,2	MCF-7	breast:

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10948947	0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11752485	0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11753370	1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11961749	0.93[EUR][1000 genomes]
rs11965285	0.92[EUR][1000 genomes]
rs11967574	0.94[EUR][1000 genomes]
rs11967626	0.91[EUR][1000 genomes]
rs11970157	0.94[EUR][1000 genomes]
rs12660754	0.94[EUR][1000 genomes]
rs4128949	0.92[EUR][1000 genomes]
rs4267958	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4398718	0.83[EUR][1000 genomes]
rs4407709	0.83[EUR][1000 genomes]
rs4457162	0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4467776	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4476831	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4568439	0.85[ASN][1000 genomes]
rs4580870	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4618527	0.94[EUR][1000 genomes]
rs4712106	0.81[EUR][1000 genomes]
rs4715557	0.81[EUR][1000 genomes]
rs4715559	0.95[EUR][1000 genomes]
rs4715561	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61392295	0.93[EUR][1000 genomes]
rs62404312	0.80[EUR][1000 genomes]
rs62404313	0.80[EUR][1000 genomes]
rs62404314	0.80[EUR][1000 genomes]
rs62404315	0.82[EUR][1000 genomes]
rs62404316	0.83[EUR][1000 genomes]
rs62404332	0.89[EUR][1000 genomes]
rs62404337	0.93[EUR][1000 genomes]
rs62404356	0.92[EUR][1000 genomes]
rs62404357	0.94[EUR][1000 genomes]
rs62406172	0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62406173	0.83[AFR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62406175	1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6459093	0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6459097	1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6904333	0.92[EUR][1000 genomes]
rs6908831	0.94[EUR][1000 genomes]
rs6915643	0.92[EUR][1000 genomes]
rs6915810	0.92[EUR][1000 genomes]
rs6918673	0.95[EUR][1000 genomes]
rs6923458	0.82[EUR][1000 genomes]
rs6939258	0.95[EUR][1000 genomes]
rs6941196	0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs72988066	0.83[EUR][1000 genomes]
rs7744070	0.82[EUR][1000 genomes]
rs7763362	0.81[EUR][1000 genomes]
rs7763981	0.81[EUR][1000 genomes]
rs7768280	0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9349788	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1034037	chr6:55222409-56069600	Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv1026411	chr6:55372845-55653498	Enhancers Bivalent/Poised TSS Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv885905	chr6:55539010-55596618	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv885906	chr6:55539010-55612431	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv885907	chr6:55539010-55621377	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv885908	chr6:55539010-55625041	Enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv885909	chr6:55539010-55674338	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:55535000-55543600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr6:55542200-55545200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr6:55542400-55543400	Flanking Active TSS	Pancreatic Islets	Pancreatic Islet
4	chr6:55542800-55543000	Flanking Active TSS	Fetal Lung	lung
5	chr6:55542800-55544600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr6:55542800-55545800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr6:55542800-55545800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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